Base conversion or substitution editing

Across TCGA cell cohorts, RNA activity of the Base conversion or substitution editing pathway is significantly associated with the RNA expression of multiple genes, with the LIVER cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ZNRF1, AGPAT1, and SHC1, each associated with the pathway in up to 5 cancer types. Since the analysis shows associations rather than directional relationships, both pathway-to-partner and partner-to-pathway views are reported.

Each partner is linked to its corresponding Q-omics profile. The box plot shows the strongest association, ZNRF1 grouped by Base conversion or substitution editing-low versus -high activity in LIVER.

Pathway-associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (pathway→partner) and Y-score (partner→pathway) are standardized regression coefficients; both directions are reported because the association is undirected. The reported p-values are derived from the association test.

Lineage	Partner gene	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
LIVER	ZNRF1 →	-0.785	-1.329	.003	.004	3	4
CNS	AGPAT1 →	-0.556	-0.843	.004	.003	2	5
OVARY	SHC1 →	-1.325	-0.806	<.001	.006	3	3
LIVER	DCUN1D3 →	-0.625	-1.434	.002	.001	2	4
CNS	DYNC1H1 →	-0.911	-1.098	.007	<.001	3	3
OVARY	CAPZB →	-0.682	-0.938	<.001	.008	3	3

Each partner links to its Q-omics profile. Showing the 6 strongest associations by consensus.

ZNRF1 by Base conversion or substitution editing activity — LIVER

Explore this box plot interactively →